The Deinococcus radiodurans DR1245 Protein, a DdrB Partner Homologous to YbjN Proteins and Reminiscent of Type III Secretion System Chaperones

Norais, Cédric; Servant, Pascale; Bouthier-de-la-Tour, Claire; Coureux, Pierre‐Damien; Ithurbide, Solenne; Vannier, Françoise; Guérin, Philippe; Dulberger, Charles L.; Satyshur, Kenneth A.; Keck, James L.; Armengaud, Jean; Cox, Michael M.; Sommer, Suzanne

doi:10.1371/journal.pone.0056558

Cited by 20 publications

(28 citation statements)

References 49 publications

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“…Of the eight genes, three have homologs identified in all three domains of life, and all eight have homologs in eukaryotes. In no instance has the function of one of these homologs been described in detail, although some hints about YbjN, YebC, YejH, and YbgI functions have appeared (76,77,87,88). In several cases, we provide here the first phenotype described for cells lacking the functions of these genes.…”

Section: Discussionmentioning

confidence: 80%

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Escherichia coli Genes and Pathways Involved in Surviving Extreme Exposure to Ionizing Radiation

Byrne

Chen

Wood

et al. 2014

Journal of Bacteriology

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To further an improved understanding of the mechanisms used by bacterial cells to survive extreme exposure to ionizing radiation (IR), we broadly screened nonessential Escherichia coli genes for those involved in IR resistance by using transposon-directed insertion sequencing (TraDIS). Forty-six genes were identified, most of which become essential upon heavy IR exposure. Most of these were subjected to direct validation. The results reinforced the notion that survival after high doses of ionizing radiation does not depend on a single mechanism or process, but instead is multifaceted. Many identified genes affect either DNA repair or the cellular response to oxidative damage. However, contributions by genes involved in cell wall structure/function, cell division, and intermediary metabolism were also evident. About half of the identified genes have not previously been associated with IR resistance or recovery from IR exposure, including eight genes of unknown function.

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Section: Discussionmentioning

confidence: 80%

“…At least one of the genes of unknown function may also be linked to the oxidative damage response. The ybjN gene encodes a protein with structural homology to the DR1245 protein of Deinococcus radiodurans and type III secretion system chaperones (87). Overexpression of ybjN leads to induction of the SOS response (88).…”

Section: Tablementioning

confidence: 99%

Escherichia coli Genes and Pathways Involved in Surviving Extreme Exposure to Ionizing Radiation

Byrne

Chen

Wood

et al. 2014

Journal of Bacteriology

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“…Recently, a novel protein encoded by the dr1245 gene was identified, which may have chaperon activity toward DdrB and possibly other substrates. Studies showed that a Δdr1245 strain is impaired in growth, but radioresistance is not affected (Norais et al 2013).…”

Section: Proteins Involved In Genome Preservation and Dna Repair Mechmentioning

confidence: 99%

Recent progress in understanding the molecular mechanisms of radioresistance in Deinococcus bacteria

2015

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The deleterious effects of ionizing radiation are a major concern of the modern world. In the last decades, outstanding interest has been given to developing new therapeutic tools designed for protection against the toxic effects of ionizing radiation. Deinococcus spp. are among the most radioresistant organisms on Earth, being able to survive extreme doses of radiation, 1000-fold higher than most vertebrates. The molecular mechanisms underlying DNA repair and biomolecular protection, which are responsible for the remarkable radioresistance of Deinococcus bacteria, have been a debatable subject for the last 60 years. This paper is focused on the most recent findings regarding the molecular background of radioresistance and on Deinococcus bacteria response to oxidative stress. Novel proteins and genes involved in the highly regulated DNA repair processes, and enzymatic and non- enzymatic antioxidant systems are presented. In addition, a recently proposed mechanism that may contribute to oxidative damage protection in Deinococcus bacteria is discussed. A better understanding of these molecular mechanisms may draw future perspectives for counteracting radiation-related toxicity.

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“…The plasmids used are listed in Table S2. Genomic DNA was extracted from D. deserti and D. radiodurans (Norais et al, 2013) as described. To construct plasmids, PCR products were generally obtained using primers including restriction sites, and cloned in pCR4Blunt-TOPO prior to recloning in the desired vectors.…”

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confidence: 99%

“…Cell pellets from 20 ml of exponentially growing D. radiodurans cultures (OD 650 of 0.3-0.4) were obtained by centrifugation and resuspended in 150 ml of SSC1X (150 mM NaCl, 15 mM trisodium citrate, buffered at pH 7). The protein extract was prepared as previously described (Bouthier de la Tour et al, 2013). Samples of 5 mg of proteins were submitted to electrophoresis in a 12 % SDS-polyacrylamide gel.…”

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confidence: 99%

The abundant and essential HU proteins in Deinococcus deserti and Deinococcus radiodurans are translated from leaderless mRNA

Tour¹,

Blanchard²,

Dulermo³

et al. 2015

Microbiology

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HU proteins have an important architectural role in nucleoid organization in bacteria. Compared with HU of many bacteria, HU proteins from Deinococcus species possess an N-terminal lysine-rich extension similar to the eukaryotic histone H1 C-terminal domain involved in DNA compaction. The single HU gene in Deinococcus radiodurans, encoding DrHU, is required for nucleoid compaction and cell viability. Deinococcus deserti contains three expressed HU genes, encoding DdHU1, DdHU2 and DdHU3. Here, we show that either DdHU1 or DdHU2 is essential in D. deserti. DdHU1 and DdHU2, but not DdHU3, can substitute for DrHU in D. radiodurans, indicating that DdHU3 may have a non-essential function different from DdHU1, DdHU2 and DrHU. Interestingly, the highly abundant DrHU and DdHU1 proteins, and also the less expressed DdHU2, are translated in Deinococcus from leaderless mRNAs, which lack a 59-untranslated region and, hence, the Shine-Dalgarno sequence. Unexpectedly, cloning the DrHU or DdHU1 gene under control of a strong promoter in an expression plasmid, which results in leadered transcripts, strongly reduced the DrHU and DdHU1 protein level in D. radiodurans compared with that obtained from the natural leaderless gene. We also show that the start codon position for DrHU and DdHU1 should be reannotated, resulting in proteins that are 15 and 4 aa residues shorter than initially reported. The expression level and start codon correction were crucial for functional characterization of HU in Deinococcus.

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The Deinococcus radiodurans DR1245 Protein, a DdrB Partner Homologous to YbjN Proteins and Reminiscent of Type III Secretion System Chaperones

Cited by 20 publications

References 49 publications

Escherichia coli Genes and Pathways Involved in Surviving Extreme Exposure to Ionizing Radiation

Escherichia coli Genes and Pathways Involved in Surviving Extreme Exposure to Ionizing Radiation

Recent progress in understanding the molecular mechanisms of radioresistance in Deinococcus bacteria

The abundant and essential HU proteins in Deinococcus deserti and Deinococcus radiodurans are translated from leaderless mRNA

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